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Understanding of polymerization mechanism based on three-dimensional structural information of extension end of amyloid fibril toward to drug discovery

Research Project

Project/Area Number 17K15441
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeMulti-year Fund
Research Field Physical pharmacy
Research InstitutionCenter for Novel Science Initatives, National Institutes of Natural Sciences (2018)
Institute for Molecular Science (2017)

Principal Investigator

Yagi Maho  大学共同利用機関法人自然科学研究機構(新分野創成センター、アストロバイオロジーセンター、生命創成探究, 生命創成探究センター, 助教 (40608999)

Research Collaborator NISHIMURA katsuyuki  
MURATA kazuyoshi  
OKUMURA hisashi  
Project Period (FY) 2017-04-01 – 2019-03-31
Project Status Completed (Fiscal Year 2018)
Budget Amount *help
¥4,160,000 (Direct Cost: ¥3,200,000、Indirect Cost: ¥960,000)
Fiscal Year 2018: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
Fiscal Year 2017: ¥2,470,000 (Direct Cost: ¥1,900,000、Indirect Cost: ¥570,000)
Keywordsアミロイド線維 / アミロイドβ / 核磁気共鳴 / 電子顕微鏡 / 核磁気共鳴法
Outline of Final Research Achievements

In order to obtain three-dimensional structural information of extension end of amyloid fibril toward to drug discovery, we attempted to characterize the amyloids formed under microgravity environment. Thioflavin T assay suggested amyloid fibrils formed more slowly in space than on the ground. Solid-state NMR and cryo-EM data showed the fibril structure formed under microgravity environment was different from that formed on the ground. Additionally, to understand the effects of the interface on oligomerization of Aβ, we performed MD simulations and NMR experiment for an Aβ40 monomer in the presence and absence of the hydrophilic/hydrophobic interface such as ganglioside membrane. We found that the hydrophobic residues of Aβ40 bound to the interface stably and Aβ40 formed a hairpin structure at the interface more readily than in bulk water. From these results, we discussed the acceleration mechanism of the oligomer formation at the interface.

Academic Significance and Societal Importance of the Research Achievements

本研究の成果は、微小重力環境および膜環境におけるAβのアミロイド線維形成メカニズムの一端を明らかにするものである。今後、得られた構造情報に基づいてアミロイド線維の伸長を特異的に阻害する化合物を設計する糸口を与え、アルツハイマー病やパーキンソン病をはじめとするアミロイド線維関連疾患の予防や治療に向けた創薬研究への可能性を切り拓くものと予想される。またアミロイド線維伸長に限らず、オリゴマー形成メカニズムに関しても理解を促すものとなる。こうしたストラテジーを構築することができれば、神経変性疾患の発症機構全般に通じるような普遍的な分子病態を解明することにつながることが期待される。

Report

(3 results)
  • 2018 Annual Research Report   Final Research Report ( PDF )
  • 2017 Research-status Report
  • Research Products

    (23 results)

All 2019 2018 2017 Other

All Int'l Joint Research (3 results) Journal Article (8 results) (of which Int'l Joint Research: 1 results,  Peer Reviewed: 8 results,  Open Access: 4 results,  Acknowledgement Compliant: 1 results) Presentation (11 results) (of which Int'l Joint Research: 4 results,  Invited: 6 results) Remarks (1 results)

  • [Int'l Joint Research] University of Cambridge(英国)

    • Related Report
      2018 Annual Research Report
  • [Int'l Joint Research] Yonsei Universtiy(韓国)

    • Related Report
      2018 Annual Research Report
  • [Int'l Joint Research] University of Cambridge(英国)

    • Related Report
      2017 Research-status Report
  • [Journal Article] NMR characterization of conformational dynamics and molecular assemblies of proteins2019

    • Author(s)
      M. Yagi-Utsumi
    • Journal Title

      Biol. Pharm. Bull.

      Volume: 42 Pages: 867-872

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Effects of a Hydrophilic/Hydrophobic Interface on Amyloid-β Peptides Studied by Molecular Dynamics Simulations and NMR Experiments2018

    • Author(s)
      Itoh Satoru G.、Yagi-Utsumi Maho、Kato Koichi、Okumura Hisashi
    • Journal Title

      The Journal of Physical Chemistry B

      Volume: 123 Issue: 1 Pages: 160-169

    • DOI

      10.1021/acs.jpcb.8b11609

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Stable isotope labeling approaches for NMR characterization of glycoproteins using eukaryotic expression systems2018

    • Author(s)
      Yanaka Saeko、Yagi Hirokazu、Yogo Rina、Yagi-Utsumi Maho、Kato Koichi
    • Journal Title

      Journal of Biomolecular NMR

      Volume: - Issue: 3 Pages: 1-10

    • DOI

      10.1007/s10858-018-0169-2

    • Related Report
      2017 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Conversion of functionally undefined homopentameric protein PbaA into a proteasome activator by mutational modification of its C-terminal segment conformation2018

    • Author(s)
      M. Yagi-Utsumi, A. Sikdar, T. Kozai, R. Inoue, M. Sugiyama, T. Uchihashi, H. Yagi, T. Satoh, and K. Kato
    • Journal Title

      Protein Engineering, Design, and Selection

      Volume: 31 Issue: 1 Pages: 29-36

    • DOI

      10.1093/protein/gzx066

    • Related Report
      2017 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Formation of the chaperonin complex studied by 2D NMR spectroscopy2017

    • Author(s)
      Takenaka Toshio、Nakamura Takashi、Yanaka Saeko、Yagi-Utsumi Maho、Chandak Mahesh S.、Takahashi Kazunobu、Paul Subhankar、Makabe Koki、Arai Munehito、Kato Koichi、Kuwajima Kunihiro
    • Journal Title

      PLOS ONE

      Volume: 12 Issue: 10 Pages: 187022-187022

    • DOI

      10.1371/journal.pone.0187022

    • Related Report
      2017 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Interactions Controlling the Slow Dynamic Conformational Motions of Ubiquitin2017

    • Author(s)
      Kitazawa Soichiro、Yagi-Utsumi Maho、Kato Koichi、Kitahara Ryo
    • Journal Title

      Molecules

      Volume: 22 Issue: 9 Pages: 1414-1414

    • DOI

      10.3390/molecules22091414

    • Related Report
      2017 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Crystal structure of human proteasome assembly chaperone PAC4 involved in proteasome formation2017

    • Author(s)
      Eiji Kurimoro, Tadashi Satoh, Yuri Ito, Eri Ishihara, Kenta Okamoto, Maho Yagi-Utsumi, Keiji Tanaka, and Koichi Kato
    • Journal Title

      Protein Sci.

      Volume: 26 Issue: 5 Pages: 1080-1085

    • DOI

      10.1002/pro.3153

    • Related Report
      2017 Research-status Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] NMR Characterization of the Conformations, Dynamics, and Interactions of Glycosphingolipids2017

    • Author(s)
      Maho Yagi-Utsumi, Takumi Yamaguchi, Yoshinori Uekusa, Koichi Kato
    • Journal Title

      NMR in Glycoscience and Glycotechnology

      Volume: - Pages: 161-178

    • Related Report
      2017 Research-status Report
    • Peer Reviewed
  • [Presentation] 神経変性疾患の解明を目指した構造生物学研究2019

    • Author(s)
      矢木真穂
    • Organizer
      サントリー生命科学財団セミナー
    • Related Report
      2018 Annual Research Report
    • Invited
  • [Presentation] 固体NMR法によるGM1ガングリオシド膜上におけるアミロイドβの構造解析2019

    • Author(s)
      矢木真穂,西村勝之、加藤晃一
    • Organizer
      日本薬学会第139年会
    • Related Report
      2018 Annual Research Report
  • [Presentation] NMR characterization of conformational dynamics and molecular assemblies of proteins2018

    • Author(s)
      M. Yagi-Utsumi, K. Kato
    • Organizer
      ExCELLS Young Scientists Forum 2018
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] “NMR analyses of conformational dynamics and molecular assemblies of amyloid-β2018

    • Author(s)
      M. Yagi-Utsumi, K. Kato
    • Organizer
      2018 Japan&Korea Joint Seminars on Biomolecular Sciences
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 固体 NMR 法を用いたガングリオシド膜上におけるアミロイドβの構造解析2018

    • Author(s)
      矢木真穂,加藤晃一,西村勝之
    • Organizer
      第57回 NMR討論会
    • Related Report
      2018 Annual Research Report
  • [Presentation] NMR structural analyses of molecular assembly of amyloid-β2018

    • Author(s)
      M. Yagi-Utsumi
    • Organizer
      The 2nd IMS-NANOTEC Joint Research Meeting
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] NMR 分光法を基軸としたタンパク質の構造ダイナミクスと分子集合メカニズムの解明2018

    • Author(s)
      矢木真穂
    • Organizer
      日本薬学会第138年会
    • Related Report
      2017 Research-status Report
    • Invited
  • [Presentation] Versatile structural architectures of archaeal homolog of proteasome assembly chaperone2017

    • Author(s)
      Maho Yagi-Utsumi, Arunima Sikdar, Tadashi Satoh and Koichi Kato
    • Organizer
      Frontier Bioorganization Forum 2017: Dynamical ordering and integrated functions of biomolecular systems
    • Related Report
      2017 Research-status Report
    • Int'l Joint Research / Invited
  • [Presentation] タンパク質の動的構造と分子集合メカニズムの理解を目指して2017

    • Author(s)
      矢木-内海真穂
    • Organizer
      第169回 薬学談話会
    • Related Report
      2017 Research-status Report
    • Invited
  • [Presentation] プロテアソームアッセンブリーシャペロンの古細菌ホモログPbaAの高次構造多型2017

    • Author(s)
      矢木-内海真穂,Arunima Sikdar,佐藤匡史,加藤晃一
    • Organizer
      第17回 日本蛋白質科学会
    • Related Report
      2017 Research-status Report
  • [Presentation] 糖脂質膜上におけるタンパク質のアミロイド線維形成2017

    • Author(s)
      矢木真穂
    • Organizer
      第2回 秩序化分子ワークショップ
    • Related Report
      2017 Research-status Report
    • Invited
  • [Remarks] 研究室ホームページ

    • URL

      https://groups.ims.ac.jp/organization/kkato_g/rombun/index.html

    • Related Report
      2017 Research-status Report

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Published: 2017-04-28   Modified: 2022-02-22  

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